The Vaadwaur Supremacy opens diplomatic relations with the Delta Quadrant Alliance sometime in 2410 following the death of Kobali leader Q'nel and a brief conflict with the Borg.

The series also features friendlier relations between the Federation and the Dominion than in STO, due to Odo's presence among the Founders.

The Iconian invasion story arc was concluded without using time travel, unlike in the game. Also, the Iconian invasion is led by a character named Supreme High Lord Inevitably-Fated-for-Greatness rather than a cabal of ancient Iconians.

StarSword's author's notes and forum posts usually include a cast list for the story in question. For example, Kanril Eleya is always said to be voiced by Jennifer Hale (in the voice of the female Commander Shepard).